RetrogeneDB ID: retro_sara_396

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_191288:16018..16696(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: GID8
• Ensembl ID: ENSSARG00000013102
• Aliases: None
• Description: GID complex subunit 8 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:15857]

Sequence

>retro_sara_396
ATGAGTTATACAGAAAAACCCGATGAAATCACAAAAGATGAGTGGATGGAAAAACTCAATAACTTACACGTCCAGCGAGC
AGACATGAACCGTCTCATCATGAACTACCTGGTGACAGGCTTCAAAGAAGCAGCAGAGAAGTTCCGCATGGAATCTGGAA
TCGAGCCCAGTGTGGATCTGGAGACGCTGGATGAGCGCATCAAGATTCGGGAGATGATCCTCAAAGGCCACATTCAGGAG
GCCATCGCCTTGGTCAACAGTCTCCACCCCGAGCTCCTGGACACAAACCGCTACCTGTATTTCCACCTGCAGCAGCACCT
GATCGAGCTGATCCGCCAGCGGGAGACAGAGGCGGCGCTGGAGTTTGCCCAGACCCAGCTGGCGGAGCAGGGCGAGGAGA
GCAGGGAGTGCCTGACGGAGATGGAGCGCACGCTGGCACTGCTGGCCTTCGACAACCCCGAGGAGTCGCCCTTTGGGGAC
CTCCTGAACATGATGCAGCGGCAGAAGGTGTGGAGCGAGGTGAACCAGGCCGTGCTGGATTACGAGAACCGGGAGTCGAC
GCCCAAGCTGGCCAAGCTGCTGAAACTGCTCCTCTGGGCTCAGAATGAGCTGGACCAGAAGAAGGTGAAGTACCCCAGAA
TGACAGACCTCAGCAGGGGGGTGATCGAGGAGCCCAAG

Alignment

ORF - retro_sara_396 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.49 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSYTEILDEITKDEWMEKLNNLHVQRADMNRLIMTSLRAEGFKEAAEKFRMESGIEPSVDLETLDERIKI
          MSYTE..DEITKDEWMEKLNNLHVQRADMNRLIM..L...GFKEAAEKFRMESGIEPSVDLETLDERIKI
Retrocopy MSYTEKPDEITKDEWMEKLNNLHVQRADMNRLIMNYL-VTGFKEAAEKFRMESGIEPSVDLETLDERIKI

Parental  REMILKGHIQEAIALVNSLHPELLDTNRYLYFHLQQQHLIELIRQRETEAALEFAQTQLAEQGEESRECL
          REMILKGHIQEAIALVNSLHPELLDTNRYLYFHL.QQHLIELIRQRETEAALEFAQTQLAEQGEESRECL
Retrocopy REMILKGHIQEAIALVNSLHPELLDTNRYLYFHL-QQHLIELIRQRETEAALEFAQTQLAEQGEESRECL

Parental  TEMERTLALLAFDNPEESPFGDLLNMMQRQKVWSEVNQAVLDYENRESTPKLAKLLKLLLWAQNELDQKK
          TEMERTLALLAFDNPEESPFGDLLNMMQRQKVWSEVNQAVLDYENRESTPKLAKLLKLLLWAQNELDQKK
Retrocopy TEMERTLALLAFDNPEESPFGDLLNMMQRQKVWSEVNQAVLDYENRESTPKLAKLLKLLLWAQNELDQKK

Parental  VKYPRMTDLSRGVIEEPK
          VKYPRMTDLSRGVIEEPK
Retrocopy VKYPRMTDLSRGVIEEPK

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Sorex araneus was not studied using RNA-Seq expression data.

ChIP-Seq

Sorex araneus was not studied using ChIP-Seq data.

EST

Sorex araneus was not studied using EST data.

TSS

Sorex araneus was not studied using FANTOM5 data.

Lab

retro_sara_396 was not experimentally validated.

Homology

Retrocopy orthology:

Sorex araneus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000012749	1 retrocopy	retro_cfam_1551,
Myotis lucifugus	ENSMLUG00000016381	2 retrocopies	retro_mluc_417, retro_mluc_418,
Monodelphis domestica	ENSMODG00000016835	1 retrocopy	retro_mdom_1208,
Mus musculus	ENSMUSG00000027573	1 retrocopy	retro_mmus_1267,
Otolemur garnettii	ENSOGAG00000013834	1 retrocopy	retro_ogar_2550,
Rattus norvegicus	ENSRNOG00000010180	1 retrocopy	retro_rnor_2248,
Sorex araneus	ENSSARG00000013102	2 retrocopies	retro_sara_396 , retro_sara_598,